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[189871_at] zinc finger protein

Description T03E6.3 /REP_DB=WormBase Gene ID /WP=CE20031 /TR=Q9XU11 /GB=CAB07282.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=zinc finger protein
Cluster 6grp_total > 10      4grp_total > 27      6grp_cgc > 54      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 69
1 2 3 4 range
A 39.8
(0.1)
A 		10.6
(-2.5)
A 		4.5
(-3)
A 		73.6
(3)
P 		69
B 16
(-3)
A 		57.3
(3)
A 		34.9
(-0.3)
A 		18.8
(-2.6)
A 		41
C 45.3
(-0.4)
A 		64.4
(3)
A 		30.6
(-3)
A 		62.6
(2.7)
A 		34
avr 33.7
(-0.8) 		44.1
(1.4) 		23.3
(-3) 		51.7
(3) 		28

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 85
1 2 3 4 5 6 range
A 17.5
(-3)
A 		40.2
(-1)
A 		87.3
(3)
P 		25.5
(-2.3)
A 		54.3
(0.2)
A 		54.4
(0.2)
A 		70
B 48.3
(-0.3)
P 		58.6
(0.6)
A 		84.5
(3)
A 		18.4
(-3)
A 		52.6
(0.1)
A 		20
(-2.9)
A 		66
C 18.7
(-2)
A 		89.5
(3)
P 		30.2
(-1.2)
A 		5
(-3)
A 		41
(-0.4)
A 		38
(-0.7)
A 		85
avr 28.2
(-1.6) 		62.8
(2.5) 		67.3
(3) 		16.3
(-3) 		49.3
(0.9) 		37.5
(-0.5) 		51
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 17
1 2 3 4 range
A 14.5
(3)
A 		2.3
(-2.5)
A 		1.2
(-3)
A 		10.8
(1.3)
P 		13
B 5.1
(-2.4)
A 		14.2
(3)
A 		8.1
(-0.6)
A 		4
(-3)
A 		10
C 15
(0.4)
A 		18.5
(3)
A 		10.7
(-2.9)
A 		10.5
(-3)
A 		8
avr 11.5
(2.8) 		11.7
(3) 		6.7
(-3) 		8.4
(-1) 		5

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 26
1 2 3 4 5 6 range
A 3.2
(-3)
A 		14.3
(1.2)
A 		19
(3)
P 		6.5
(-1.7)
A 		16.4
(2)
A 		13.2
(0.8)
A 		16
B 16.8
(1.3)
P 		19.5
(2.3)
A 		20.5
(2.7)
A 		4.9
(-3)
A 		21.4
(3)
A 		7.5
(-2.1)
A 		17
C 6.9
(-1.7)
A 		27.3
(3)
P 		7.7
(-1.5)
A 		1
(-3)
A 		13.3
(-0.2)
A 		12.7
(-0.3)
A 		26
avr 9
(-1.2) 		20.4
(3) 		15.7
(1.3) 		4.1
(-3) 		17
(1.7) 		11.1
(-0.4) 		16
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189871_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12912
Sequence Type Exemplar sequence
Representative Public ID T03E6.3 NCBI
Target Description T03E6.3 /REP_DB=WormBase Gene ID /WP=CE20031 /TR=Q9XU11 /GB=CAB07282.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=zinc finger protein
Cluster Evidence This cluster is supported by a Sanger Annotation.
Annotation Method Description
Annotation Description This probe set was annotated using the Matching Probes based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_074793(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_074793 NCBI Caenorhabditis elegans T03E6.3 (T03E6.3) mRNA, complete cds. 11/11 None
GENEFINDER00000008705 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:16581119:16584017:-1 9/11 None
T03E6.3 ENSEMBL cdna:known chromosome:CEL140:V:16581119:16582987:-1 gene:T03E6.3 11/11 None
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:16581118-16582987(-) 100.0 100.0
Public Domain and Genome References
Gene Title zinc finger protein
Gene Symbol nhr-271
Ensembl T03E6.3
Entrez Gene 188016 Entrez gene
SwissProt Q9XU11 EMBL-EBI
WormBase CE20031 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6355 regulation of transcription, DNA-dependent inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3700 transcription factor activity inferred from electronic annotation QuickGO AmiGO
3707 steroid hormone receptor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB07282 Hypothetical protein T03E6.3 [Caenorhabditis elegans] ref|NP_507194.1| T03E6.3 [Caenorhabditis elegans] 0.0
blast CAB16534 Hypothetical protein Y70C5C.6a [Caenorhabditis elegans] ref|NP_001024286.1| Nuclear Hormone Receptor family member (nhr-112) [Caenorhabditis elegans] 1.0E-108
blast CAB16534 Hypothetical protein Y70C5C.6a [Caenorhabditis elegans] ref|NP_001024286.1| Nuclear Hormone Receptor family member (nhr-112) [Caenorhabditis elegans] 1.0E-102
blast CAE70490 Hypothetical protein CBG17088 [Caenorhabditis briggsae] 3.0E-97
blast CAE70490 Hypothetical protein CBG17088 [Caenorhabditis briggsae] 5.0E-93
Protein Domains
Database ID Description E-Value
Pfam IPR003002 EMBL-EBI 7TM chemoreceptor, subfamily 1 5.1E-53
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000008705 2 34-56,63-85
Sequence
Target Sequence 
>C. ELEGANS:189871_AT
gctctattgcggaattttatcccaaaattatggcaaattgatccattattgaattatata
cggaatttcaagaagtacgaggcgatggagcaaccggatttggagcaaataataatcaat
ttttataaaggagctatgccggagaaggggagtatgaccgattcggaaataccaggaaat
tcgattttgatttatagagtaacattttgcgacactactaaaataaccccattattttta
ttttttaggatcttcaagccattttggagtttctattttcataatatgatacagccaata
attttcatgaaactaaaggaacaagaatttatggcaatcatttggctgatgttttttgat
aatggatattcaaacatatctgatgaatgtcttgaaatgtgttggaacatcagaaaagtg
atattgcgggagcttagaaactatcaaattgatggaaattgcgaagaaagtagacttttt
gaaactttggaatcgttggaatatatcgaaaaaggagagagaaagttgatggaggagatg
ctgatttgcgaaattaatgacttacgcattcatgacgatttt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCTCTATTGCGGAATTTTATCCCAA 182 301 502 Antisense
AGTACGAGGCGATGGAGCAACCGGA 185 61 575 Antisense
GGAGCAACCGGATTTGGAGCAAATA 497 519 588 Antisense
GGAGCTATGCCGGAGAAGGGGAGTA 458 521 631 Antisense
GAAGGGGAGTATGACCGATTCGGAA 281 333 645 Antisense
ATAGAGTAACATTTTGCGACACTAC 76 23 695 Antisense
GCGACACTACTAAAATAACCCCATT 609 289 710 Antisense
GGATCTTCAAGCCATTTTGGAGTTT 105 511 749 Antisense
GCCATTTTGGAGTTTCTATTTTCAT 118 281 759 Antisense
GATATTGCGGGAGCTTAGAAACTAT 187 427 921 Antisense
TGACTTACGCATTCATGACGATTTT 306 569 1059 Antisense
Sequence Source Affymetrix Proprietary Database